RanBALL: An Ensemble Random Projection Model for Identifying Subtypes of B-cell Acute Lymphoblastic Leukemia
RanBALL (an Ensemble Random Projection-Based Model for Identifying B-Cell Acute Lymphoblastic Leukemia Subtypes), an accurate and cost-effective model for B-ALL subtype identification based on transcriptomic profiling only. Leveraging the random projection and SVM techniques, our RanBALL enables to identify accurately and efficiently 20 distinct B-ALL subtypes, which could provide reliable diagnostic insights that can significantly aid clinical decision-making processes.
- Clone the RanBALL git repository
git clone https://github.com/wan-mlab/RanBALL.git- Navigate to the directory of RanBALL package
cd /your path/RanBALL
pip install .- Modify the System Path and import module
import sys; sys.path.append('RanBALL')
from RanBALL import RanBALL- unzip and read the test file
test = pd.read_csv('filter_TPM_test.csv', index_col=0)- B-ALL subtype prediction
RanBALL.Predict(Exp = test, exp_type = 'TPM')exp_type also could be 'Raw_count' and 'FPKM', which would be transformed to TPM for model training.
- Example Outputs
The prediction results will be stored and exported to the Prediction_results.csv
If you find any bugs or problems, or you have any comments on RanBALL, please don't hesitate to contact via email [email protected] or Issues.
Lusheng Li, Shibiao Wan
RanBALL: An Ensemble Random Projection Model for Identifying Subtypes of B-cell Acute Lymphoblastic Leukemia Lusheng Li, Hanyu Xiao, Xinchao Wu, Zhenya Tang, Joseph D. Khoury, Jieqiong Wang, Shibiao Wan bioRxiv 2024.09.24.614777; doi: https://doi.org/10.1101/2024.09.24.614777
GNU GENERAL PUBLIC LICENSE
Version 3, 29 June 2007
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see https://www.gnu.org/licenses/.